Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A0 F0 I1 R1
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
581,821 |
+C |
coding (117/1734 nt) |
h16_A0555 → |
zinc metalloprotease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 581,820 | 1 | . | C | 100.0%
| 94.1
/ NA
| 25 | S39T (AGC→ACC) | h16_A0555 | zinc metalloprotease |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (15/10); total (15/10) |
GGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTC > AM260479/581694‑581947
|
ggCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGcc > 1:159959/1‑134 (MQ=255)
cgcgCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGcc > 2:1120439/1‑134 (MQ=255)
ggcggcGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGc > 1:521364/1‑134 (MQ=255)
gcggcgCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGc < 2:159959/133‑1 (MQ=255)
gACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCg > 2:187535/1‑133 (MQ=255)
cGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGc < 2:764099/106‑1 (MQ=255)
cGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGc > 1:764099/1‑106 (MQ=255)
cTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCAtctc > 2:704444/1‑134 (MQ=255)
gcgcTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGc < 1:1120439/132‑1 (MQ=255)
ggCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGa < 2:521364/134‑1 (MQ=255)
ggCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGa < 1:187535/134‑1 (MQ=255)
cAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGcc > 1:826566/1‑84 (MQ=255)
cAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGcc < 2:826566/84‑1 (MQ=255)
aGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGt > 2:522790/1‑133 (MQ=255)
cgcgCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGa < 1:318976/114‑1 (MQ=255)
cgcgCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGa > 2:318976/1‑114 (MQ=255)
gcgcACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGc > 2:1023042/1‑62 (MQ=255)
gcgcACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGc < 1:1023042/62‑1 (MQ=255)
gcgcACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGc > 2:588467/1‑133 (MQ=255)
gcgcACGGCACCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGc > 2:866057/1‑133 (MQ=255)
cGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAg > 1:998590/1‑80 (MQ=255)
cGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAg < 2:998590/80‑1 (MQ=255)
cGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAg > 2:237703/1‑134 (MQ=255)
gCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTc > 2:540253/1‑134 (MQ=255)
cgcCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTc < 1:704444/134‑1 (MQ=255)
|
GGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTC > AM260479/581694‑581947
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGGCTCCGCGTCACATCGCGCAGGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAAC > AM260479/581672‑581962
|
CGGCTCCGCGTCACATCGCGCAGGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑C < GWNJ‑0478:712:GW2002102894th:2:1108:5215:49968/150‑1 (MQ=60)
GCGTCACATCGCGCAGGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCG > GWNJ‑0478:712:GW2002102894th:2:1111:14930:46484/1‑150 (MQ=60)
GGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCC > GWNJ‑0478:712:GW2002102894th:2:1215:3787:7630/1‑150 (MQ=60)
agacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCT < GWNJ‑0478:712:GW2002102894th:2:2211:11118:5687/93‑1 (MQ=60)
CGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:2110:17809:66619/1‑136 (MQ=60)
GGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGAC < GWNJ‑0478:712:GW2002102894th:2:2214:5500:99447/148‑1 (MQ=60)
GCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCctgtctcttatacacatctccgagcccacgagacac > GWNJ‑0478:712:GW2002102894th:2:2115:13686:84996/1‑114 (MQ=60)
agacagGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGG < GWNJ‑0478:712:GW2002102894th:2:1202:19943:2486/144‑1 (MQ=60)
CGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGG < GWNJ‑0478:712:GW2002102894th:2:1110:6060:93623/150‑1 (MQ=60)
AGGGTACGCCGCGCACGGCCCCGGCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCctgtctcttatacacatctccgagcccacgagacactcgc > GWNJ‑0478:712:GW2002102894th:2:2207:17449:70236/1‑110 (MQ=60)
GCGCCAGCCACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAAC < GWNJ‑0478:712:GW2002102894th:2:2108:18294:44695/150‑1 (MQ=60)
|
CGGCTCCGCGTCACATCGCGCAGGCGCCGGCCATTGCCGCGCTGGCGGCGCATGGACGCCATGGCGGCGGCCGCTGGCGGCGCTGCTGGCGCTGACGTTCGCGGCGCCGGCCTGGCCCCAGGGTACGCCGCGCACGGCCCCGGCGCCAG‑CACGCCGGTGGCGGCTGCGCCCGCGGCCAGGCCCCCGCAGCCGGTGCCCGCCATCTCGGGCGAGGCCAGCGACCAGGTCTATGACAACCTGAACCGCAGCGTGAAGGCGGGCCAGAAGTCCGAGTTCGGCCTGCGCACCAAC > AM260479/581672‑581962
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
